Related papers: On the Maximum Span of Fixed-Angle Chains
Erd\H{o}s and Fishburn studied the maximum number of points in the plane that span $k$ distances and classified these configurations, as an inverse problem of the Erd\H{o}s distinct distances problem. We consider the analogous problem for…
Planar/flat configurations of fixed-angle chains and trees are well studied in the context of polymer science, molecular biology, and puzzles. In this paper, we focus on a simple type of fixed-angle linkage: every edge has unit length…
We consider upward-planar layered drawings of directed graphs, i.e., crossing-free drawings in which each edge is drawn as a y-monotone curve going upward from its tail to its head, and the y-coordinates of the vertices are integers. The…
We show that given $m$ proteins (or protein backbones, which are modeled as 3D polygonal chains each of length O(n)) the problem of protein local structure alignment under the discrete Fr\'{e}chet distance is as hard as Independent Set. So…
In the longest plane spanning tree problem, we are given a finite planar point set $\mathcal{P}$, and our task is to find a plane (i.e., noncrossing) spanning tree for $\mathcal{P}$ with maximum total Euclidean edge length. Despite more…
A planar orthogonal drawing {\Gamma} of a connected planar graph G is a geometric representation of G such that the vertices are drawn as distinct points of the plane, the edges are drawn as chains of horizontal and vertical segments, and…
Given a set $P$ of $n$ points in the plane, we solve the problems of constructing a geometric planar graph spanning $P$ 1) of minimum degree 2, and 2) which is 2-edge connected, respectively, and has max edge length bounded by a factor of 2…
The mechanisms by which a protein's 3D structure can be determined based on its amino acid sequence have long been one of the key mysteries of biophysics. Often simplistic models, such as those derived from geometric constraints, capture…
The evolutionary trajectory of a protein through sequence space is constrained by function and three-dimensional (3D) structure. Residues in spatial proximity tend to co-evolve, yet attempts to invert the evolutionary record to identify…
We revisit the minimum-link path problem: Given a polyhedral domain and two points in it, connect the points by a polygonal path with minimum number of edges. We consider settings where the vertices and/or the edges of the path are…
To determine the 3D conformation of proteins is a necessity to understand their functions or interactions with other molecules. It is commonly admitted that, when proteins fold from their primary linear structures to their final 3D…
In this paper, we study movements of simple polygonal chains in 3D. We say that an open, simple polygonal chain can be straightened if it can be continuously reconfigured to a straight sequence of segments in such a manner that both the…
The problem of efficiently computing and visualizing the structural resemblance between a pair of protein backbones in 3D has led Bereg et al. to pose the Chain Pair Simplification problem (CPS). In this problem, given two polygonal chains…
In this paper, we study movements of simple polygonal chains in 3D. We say that an open, simple polygonal chain can be straightened if it can be continuously reconfigured to a straight sequence of segments in such a manner that both the…
Given is a 1.5D terrain $\mathcal{T}$, i.e., an $x$-monotone polygonal chain in $\mathbb{R}^2$. For a given $2\le k\le n$, our objective is to approximate the largest area or perimeter convex polygon of exactly or at most $k$ vertices…
A planar orthogonal drawing $\Gamma$ of a planar graph $G$ is a geometric representation of $G$ such that the vertices are drawn as distinct points of the plane, the edges are drawn as chains of horizontal and vertical segments, and no two…
Fixed points for scalar theories in $4-\varepsilon$, $6-\varepsilon$ and $3-\varepsilon$ dimensions are discussed. It is shown how a large range of known fixed points for the four dimensional case can be obtained by using a general…
Despite the constant evolution of similarity searching research, it continues to face the same challenges stemming from the complexity of the data, such as the curse of dimensionality and computationally expensive distance functions.…
In this paper, we study the 3D strip packing problem in which we are given a list of 3-dimensional boxes and required to pack all of them into a 3-dimensional strip with length 1 and width 1 and unlimited height to minimize the height used.…
In 1946, Erd\H{o}s posed the distinct distance problem, which seeks to find the minimum number of distinct distances between pairs of points selected from any configuration of $n$ points in the plane. The problem has since been explored…